PDB entry 6gg0

View 6gg0 on RCSB PDB site
Description: cryo-em structure of bk polyomavirus like particle in complex with single chain antibody scfv41f17
Deposited on 2018-05-02, released 2019-03-06
The last revision was dated 2019-12-11, with a file datestamp of 2019-12-06.
Experiment type: EM
Resolution: 4.24 Å
R-factor: N/A
AEROSPACI score: 0.04 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '1':
    Compound: Capsid protein VP1
    Species: BK polyomavirus [TaxId:1891762]
    Gene: VP1, vp1, BK1035_00004, BK1055_00004
    Database cross-references and differences (RAF-indexed):
  • Chain '2':
    Compound: Capsid protein VP1
    Species: BK polyomavirus [TaxId:1891762]
    Gene: VP1, vp1, BK1035_00004, BK1055_00004
    Database cross-references and differences (RAF-indexed):
  • Chain '3':
    Compound: Capsid protein VP1
    Species: BK polyomavirus [TaxId:1891762]
    Gene: VP1, vp1, BK1035_00004, BK1055_00004
    Database cross-references and differences (RAF-indexed):
  • Chain '4':
    Compound: Capsid protein VP1
    Species: BK polyomavirus [TaxId:1891762]
    Gene: VP1, vp1, BK1035_00004, BK1055_00004
    Database cross-references and differences (RAF-indexed):
  • Chain '5':
    Compound: Capsid protein VP1
    Species: BK polyomavirus [TaxId:1891762]
    Gene: VP1, vp1, BK1035_00004, BK1055_00004
    Database cross-references and differences (RAF-indexed):
  • Chain '6':
    Compound: Capsid protein VP1
    Species: BK polyomavirus [TaxId:1891762]
    Gene: VP1, vp1, BK1035_00004, BK1055_00004
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GG0 (0-End)
  • Chain 'L':
    Compound: light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GG0 (0-108)

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain '1':
    Sequence, based on SEQRES records:
    >6gg01 (1:)
maptkrkgecpgaapkkpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpd
enlrgfslklsaendfssdsperkmlpcystariplpnlnedltcgnllmweavtvqtev
igitsmlnlhagsqkvhehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitp
knptaqsqvmntdhkayldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtnt
attvlldeqgvgplckadslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpy
pisfllsdlinrrtqrvdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqtk
ml

    Sequence, based on observed residues (ATOM records):
    >6gg01 (1:)
pkkpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpdenlrgfslklsaen
dfssdsperkmlpcystariplpnlnedltcgnllmweavtvqtevigitsmlnlhagsq
kvhehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitpknptaqsqvmntdh
kayldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtntattvlldeqgvgpl
ckadslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpypisfllsdlinrrt
qrvdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqtkm

  • Chain '2':
    Sequence, based on SEQRES records:
    >6gg02 (2:)
maptkrkgecpgaapkkpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpd
enlrgfslklsaendfssdsperkmlpcystariplpnlnedltcgnllmweavtvqtev
igitsmlnlhagsqkvhehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitp
knptaqsqvmntdhkayldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtnt
attvlldeqgvgplckadslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpy
pisfllsdlinrrtqrvdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqtk
ml

    Sequence, based on observed residues (ATOM records):
    >6gg02 (2:)
pkkpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpdenlrgfslklsaen
dfssdsperkmlpcystariplpnlnedltcgnllmweavtvqtevigitsmlnlhagsq
kvhehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitpknptaqsqvmntdh
kayldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtntattvlldeqgvgpl
ckadslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpypisfllsdlinrrt
qrvdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqtk

  • Chain '3':
    Sequence, based on SEQRES records:
    >6gg03 (3:)
maptkrkgecpgaapkkpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpd
enlrgfslklsaendfssdsperkmlpcystariplpnlnedltcgnllmweavtvqtev
igitsmlnlhagsqkvhehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitp
knptaqsqvmntdhkayldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtnt
attvlldeqgvgplckadslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpy
pisfllsdlinrrtqrvdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqtk
ml

    Sequence, based on observed residues (ATOM records):
    >6gg03 (3:)
kpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpdenlrgfslklsaendf
ssdsperkmlpcystariplpnlnedltcgnllmweavtvqtevigitsmlnlhagsqkv
hehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitpknptaqsqvmntdhka
yldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtntattvlldeqgvgplck
adslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpypisfllsdlinrrtqr
vdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqt

  • Chain '4':
    Sequence, based on SEQRES records:
    >6gg04 (4:)
maptkrkgecpgaapkkpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpd
enlrgfslklsaendfssdsperkmlpcystariplpnlnedltcgnllmweavtvqtev
igitsmlnlhagsqkvhehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitp
knptaqsqvmntdhkayldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtnt
attvlldeqgvgplckadslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpy
pisfllsdlinrrtqrvdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqtk
ml

    Sequence, based on observed residues (ATOM records):
    >6gg04 (4:)
pkepvqvpkllikggvevlevktgvdaitevecflnpemgdpdenlrgfslklsaendfs
sdsperkmlpcystariplpnlnedltcgnllmweavtvqtevigitsmlnlhagsqkvh
ehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitpknptaqsqvmntdhkay
ldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtntattvlldeqgvgplcka
dslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpypisfllsdlinrrtqrv
dgqpmygmesqveevrvf

  • Chain '5':
    Sequence, based on SEQRES records:
    >6gg05 (5:)
maptkrkgecpgaapkkpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpd
enlrgfslklsaendfssdsperkmlpcystariplpnlnedltcgnllmweavtvqtev
igitsmlnlhagsqkvhehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitp
knptaqsqvmntdhkayldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtnt
attvlldeqgvgplckadslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpy
pisfllsdlinrrtqrvdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqtk
ml

    Sequence, based on observed residues (ATOM records):
    >6gg05 (5:)
vpkllikggvevlevktgvdaitevecflnpemgdpdenlrgfslklsaendfssdsper
kmlpcystariplpnlnedltcgnllmweavtvqtevigitsmlnlhagsqkvhehgggk
piqgsnfhffavggdplemqgvlmnyrtkypdgtitpknptaqsqvmntdhkayldknna
ypvecwvpdpsrnentryfgtftggenvppvlhvtntattvlldeqgvgplckadslyvs
aadicglftnssgtqqwrglaryfkirlrkrsvknpypisfllsdlinrrtqrvdgqpmy
gmesqveevrvfdgterlpgdpdmiryidkqgqlqtkm

  • Chain '6':
    Sequence, based on SEQRES records:
    >6gg06 (6:)
maptkrkgecpgaapkkpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpd
enlrgfslklsaendfssdsperkmlpcystariplpnlnedltcgnllmweavtvqtev
igitsmlnlhagsqkvhehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitp
knptaqsqvmntdhkayldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtnt
attvlldeqgvgplckadslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpy
pisfllsdlinrrtqrvdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqtk
ml

    Sequence, based on observed residues (ATOM records):
    >6gg06 (6:)
kkpkepvqvpkllikggvevlevktgvdaitevecflnpemgdpdenlrgfslklsaend
fssdsperkmlpcystariplpnlnedltcgnllmweavtvqtevigitsmlnlhagsqk
vhehgggkpiqgsnfhffavggdplemqgvlmnyrtkypdgtitpknptaqsqvmntdhk
ayldknnaypvecwvpdpsrnentryfgtftggenvppvlhvtntattvlldeqgvgplc
kadslyvsaadicglftnssgtqqwrglaryfkirlrkrsvknpypisfllsdlinrrtq
rvdgqpmygmesqveevrvfdgterlpgdpdmiryidkqgqlqtk

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6gg0H (H:)
qvqlqesgpglvkpsqtlsltctvsggsisgggyywswirqhpgkglefigyiyynrgty
ynpalksrltisvdtskndfslklssvsaadtavyycarcvlggygsdafdrwgqgttvt
vssg

    Sequence, based on observed residues (ATOM records):
    >6gg0H (H:)
qvqlqesgpglvkpsqtlsltctvsggsisgggyywswirqhpgkglefigyiyynrgty
ynpalksrltisvdtskndfslklssvsaadtavyycarcvlggygsdafdrwgqgttvt
vss

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records:
    >6gg0L (L:)
eivltqspvtlslspgerailscrasqsvsshlawyqqkpgqaprlliydassrangipa
rfsgsgsgtdftltisslapedfavyycqqrsswppsltfgggtkveir